Dear All
We have recently released SPRINT v1.0.5. SPRINT provides parallelised
versions of existing R functions (e.g. statistical, machine learning,
utility) that often exceed computational limits (speed or memory) with
large or complex data sets.
SPRINT 1.0.5 now:
-> runs on Mac OSX multi-cores (i.e. you may not need to obtain access
to compute clusters)
-> provides a parallelised version of the Hamming distance (based on
original version contained in stringdistmatrix() by M van der Loo, and
parallelised differently from the option provided therein)
-> compliant with MPI3 (and the latest version of the mpich package)
Download and instructions available at www.r-sprint.org.
SPRINT 1.0.5 is not available on CRAN as we have not yet completed
testing against the latest major release of R (3.0.x). However, we
will release a small incremental update of SPRINT as version 1.0.6
within the next few weeks that will be available via CRAN and will
work with R3.
Notes:
- With the availability of SPRINT for Mac users, we hope to address
computational issues that are too large or too slow for these users,
but still small enough to not require a much larger number of nodes
and cores (i.e. compute clusters or supercomputers like HECToR or
ARCHER).
- We have parallelised the Hamming distance as from collaborators and
course participants we know this to have potential in use for
Next-Gen-Sequencing, e.g. measuring pairwise distances between
nucleotide sequences. In principle, though, Hamming is a distance
useful for string or binary data vectors.
SPRINT Project
sprint at ed.ac.uk
www.r-sprint.org
The University of Edinburgh
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The University of Edinburgh is a charitable body, registered in
Scotland, with registration number SC005336.